miRNA display CGI


Results 1 - 20 of 54 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
18384 5' -55.1 NC_004681.1 + 12490 1.11 0.001023
Target:  5'- uUCAAGGUGACCGCGGAAGGCAGCAACg -3'
miRNA:   3'- -AGUUCCACUGGCGCCUUCCGUCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 25048 0.82 0.10712
Target:  5'- aCAcGGUGACCGCaGAGGGCGGCGcggGCg -3'
miRNA:   3'- aGUuCCACUGGCGcCUUCCGUCGU---UG- -5'
18384 5' -55.1 NC_004681.1 + 2027 0.78 0.195315
Target:  5'- --cAGGUGGUCGUGGAGGGCGGCcGCa -3'
miRNA:   3'- aguUCCACUGGCGCCUUCCGUCGuUG- -5'
18384 5' -55.1 NC_004681.1 + 27754 0.77 0.222732
Target:  5'- ---cGGUGACgCGCGGcAGcGGCGGCAGCg -3'
miRNA:   3'- aguuCCACUG-GCGCC-UU-CCGUCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 38980 0.75 0.280279
Target:  5'- uUCAugcgcuGGGUGGCCGacgaGGAAGGCGuCAACg -3'
miRNA:   3'- -AGU------UCCACUGGCg---CCUUCCGUcGUUG- -5'
18384 5' -55.1 NC_004681.1 + 10963 0.72 0.457945
Target:  5'- aUCAGGccagcGUGaACCGCGGGAGaggucgcaaucGCGGCGGCg -3'
miRNA:   3'- -AGUUC-----CAC-UGGCGCCUUC-----------CGUCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 23774 0.72 0.457945
Target:  5'- aUCGAGGUGACCGaGGAAGccaccGCAGgCAc- -3'
miRNA:   3'- -AGUUCCACUGGCgCCUUC-----CGUC-GUug -5'
18384 5' -55.1 NC_004681.1 + 40131 0.72 0.457945
Target:  5'- ---cGGUGACCGCccgGGAcAGGCAggccGCGACg -3'
miRNA:   3'- aguuCCACUGGCG---CCU-UCCGU----CGUUG- -5'
18384 5' -55.1 NC_004681.1 + 28137 0.71 0.477817
Target:  5'- gCAAcGGcGGCgGCGGAucgagcGGCGGCAGCg -3'
miRNA:   3'- aGUU-CCaCUGgCGCCUu-----CCGUCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 22521 0.71 0.477817
Target:  5'- uUCAGGGUGuAgUGCGGAGGGUugccguccGCGGCc -3'
miRNA:   3'- -AGUUCCAC-UgGCGCCUUCCGu-------CGUUG- -5'
18384 5' -55.1 NC_004681.1 + 58760 0.7 0.518771
Target:  5'- gCAGGuGUGGcCCGCGGcgcAGGCGGCcguGGCg -3'
miRNA:   3'- aGUUC-CACU-GGCGCCu--UCCGUCG---UUG- -5'
18384 5' -55.1 NC_004681.1 + 61394 0.7 0.52923
Target:  5'- cCAAGGUcGGCgGCaacagcaacGggGGCGGCAGCu -3'
miRNA:   3'- aGUUCCA-CUGgCGc--------CuuCCGUCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 54681 0.7 0.52923
Target:  5'- aCGA--UGAUUGCGGggGGCAGCuGGCu -3'
miRNA:   3'- aGUUccACUGGCGCCuuCCGUCG-UUG- -5'
18384 5' -55.1 NC_004681.1 + 39384 0.7 0.571767
Target:  5'- gUCGAuGGUGGCCGCgcacaucgGGGAGuacuugacGCGGCGGCc -3'
miRNA:   3'- -AGUU-CCACUGGCG--------CCUUC--------CGUCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 30134 0.7 0.571767
Target:  5'- aCAAGGcGGCCuGUGGGucGGGCucaGGCGGCg -3'
miRNA:   3'- aGUUCCaCUGG-CGCCU--UCCG---UCGUUG- -5'
18384 5' -55.1 NC_004681.1 + 6588 0.7 0.571767
Target:  5'- gUCAAGGgcgccaugGGCCGCGGcaaggacaucaAGGGCuucgcgcuGCAACu -3'
miRNA:   3'- -AGUUCCa-------CUGGCGCC-----------UUCCGu-------CGUUG- -5'
18384 5' -55.1 NC_004681.1 + 30977 0.69 0.582541
Target:  5'- aCAGGGUG-UCGCGGGGcuccagcgggucGGCGGgCGGCg -3'
miRNA:   3'- aGUUCCACuGGCGCCUU------------CCGUC-GUUG- -5'
18384 5' -55.1 NC_004681.1 + 20663 0.69 0.590107
Target:  5'- aUCGAGGUcACCGCGGAGuucccacgcaaugcGGUAgagaccGCGACa -3'
miRNA:   3'- -AGUUCCAcUGGCGCCUU--------------CCGU------CGUUG- -5'
18384 5' -55.1 NC_004681.1 + 10517 0.69 0.603115
Target:  5'- gCAAGGgcgcgaaguccGACCGCGGAaucccgcAGGCGGUGGa -3'
miRNA:   3'- aGUUCCa----------CUGGCGCCU-------UCCGUCGUUg -5'
18384 5' -55.1 NC_004681.1 + 62633 0.69 0.625955
Target:  5'- cCGAGGUaGACgGUGucGGAGGCGGCuGCc -3'
miRNA:   3'- aGUUCCA-CUGgCGC--CUUCCGUCGuUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.